2BPA

ATOMIC STRUCTURE OF SINGLE-STRANDED DNA BACTERIOPHAGE PHIX174 AND ITS FUNCTIONAL IMPLICATIONS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Observed: 0.209 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Atomic structure of single-stranded DNA bacteriophage phi X174 and its functional implications.

McKenna, R.Xia, D.Willingmann, P.Ilag, L.L.Krishnaswamy, S.Rossmann, M.G.Olson, N.H.Baker, T.S.Incardona, N.L.

(1992) Nature 355: 137-143

  • DOI: 10.1038/355137a0
  • Primary Citation of Related Structures:  
    2BPA

  • PubMed Abstract: 
  • The mechanism of DNA ejection, viral assembly and evolution are related to the structure of bacteriophage phi X174. The F protein forms a T = 1 capsid whose major folding motif is the eight-stranded antiparallel beta barrel found in many other icosahedral viruses ...

    The mechanism of DNA ejection, viral assembly and evolution are related to the structure of bacteriophage phi X174. The F protein forms a T = 1 capsid whose major folding motif is the eight-stranded antiparallel beta barrel found in many other icosahedral viruses. Groups of 5 G proteins form 12 dominating spikes that enclose a hydrophilic channel containing some diffuse electron density. Each G protein is a tight beta barrel with its strands running radially outwards and with a topology similar to that of the F protein. The 12 'pilot' H proteins per virion may be partially located in the putative ion channel. The small, basic J protein is associated with the DNA and is situated in an interior cleft of the F protein. Tentatively, there are three regions of partially ordered DNA structure,


    Related Citations: 
    • Structure Determination of the Bacteriophage PhiX174
      McKenna, R., Xia, D., Willingmann, P., Ilag, L.L., Rossmann, M.G.
      (1992) Acta Crystallogr B 48: 499
    • Analysis of the Single-Stranded DNA Bacteriophage PhiX174 Refined at a Resolution of 3.0 A
      McKenna, R., Ilag, L.L., Rossmann, M.G.
      (1994) J Mol Biol 237: 517
    • Preliminary Investigation of the Phage PhiX174
      Willingmann, P., Krishnaswamy, S., McKenna, R., Smith, T.J., Olson, N.H., Rossmann, M.G., Stow, P.L., Incardona, N.L.
      (1990) J Mol Biol 212: 345
    • Biology of the Bacteriophage PhiX174
      Hayashi, M., Adyama, A., Delwood, L., Richardson, D.L., Hayashi, M.N.
      (1988) The Bacteriophages (the Viruses) 2: 1
    • Nucleoside Sequence of Bacteriophage PhiX174 DNA
      Sanger, F., Air, G.M., Barrell, B.G., Brown, N.L., Coulson, A.R., Fiddes, J.C., Hutchinson, C.A., Slocombe, P.M., Smith, M.
      (1977) Nature 265: 687

    Organizational Affiliation

    Department of Biological Sciences, Purdue University, West Lafayette, Indiana 47907.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (SUBUNIT OF BACTERIOPHAGE PHIX174)B [auth 1]426Escherichia virus phiX174Mutation(s): 0 
Find proteins for P03641 (Enterobacteria phage phiX174)
Explore P03641 
Go to UniProtKB:  P03641
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (SUBUNIT OF BACTERIOPHAGE PHIX174)C [auth 2]175Escherichia virus phiX174Mutation(s): 0 
Find proteins for P03643 (Enterobacteria phage phiX174)
Explore P03643 
Go to UniProtKB:  P03643
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (SUBUNIT OF BACTERIOPHAGE PHIX174)D [auth 3]37Escherichia virus phiX174Mutation(s): 0 
Find proteins for P69592 (Enterobacteria phage phiX174)
Explore P69592 
Go to UniProtKB:  P69592
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*AP*AP*AP*AP*C)-3')A5N/A
    Protein Feature View
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    • Reference Sequence
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 3.00 Å
    • R-Value Observed: 0.209 
    • Space Group: P 1 21 1
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 305.58α = 90
    b = 360.78β = 92.89
    c = 299.46γ = 90
    Software Package:
    Software NamePurpose
    PROLSQrefinement

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 1991-12-03
      Type: Initial release
    • Version 1.1: 2008-05-22
      Changes: Version format compliance
    • Version 1.2: 2011-07-13
      Changes: Version format compliance